genome.fa.s1563.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  849978

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 555 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295904--296104	41	4.9	41	85	4	271	18	20	23	36	1.95
295932--296001	20	3.5	20	70	3	68	18	21	22	37	1.94
295995--296060	21	3.2	21	66	20	57	18	19	25	36	1.94
296075--296114	21	1.9	21	100	0	80	20	20	27	32	1.97
296710--296747	6	6.5	6	96	3	69	0	15	52	31	1.43
296876--296923	20	2.5	20	89	3	71	41	16	27	14	1.87
296849--296962	60	1.9	61	90	1	185	41	20	21	16	1.90
296896--297028	40	3.3	41	90	2	198	38	22	21	17	1.93
296956--297023	21	3.3	21	69	22	72	38	26	19	16	1.92
298308--298350	22	2.0	22	81	9	52	55	2	0	41	1.12
301591--301859	54	5.1	54	80	8	297	35	21	17	25	1.95
301591--301859	107	2.6	108	79	7	288	35	21	17	25	1.95
301591--301888	153	1.9	158	80	8	358	35	21	17	25	1.95
305452--305504	24	2.2	24	100	0	106	43	7	16	32	1.76
308409--308623	54	4.0	54	81	3	227	35	20	18	26	1.95
308576--308664	46	1.9	46	86	4	126	37	21	16	24	1.94
315137--315289	54	2.8	54	91	0	243	35	22	15	26	1.94
315245--315331	42	2.1	42	86	0	120	33	19	18	28	1.95
315191--315385	96	2.0	96	86	2	266	33	20	17	28	1.96
315287--315431	54	2.7	54	82	4	168	34	20	17	27	1.95
315137--315418	150	1.9	150	84	2	379	34	21	17	26	1.96
315822--315989	90	1.9	90	93	0	291	36	11	7	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315961--316000	20	2.0	20	85	0	53	52	2	0	45	1.14
322513--322690	90	2.0	90	91	2	286	37	11	6	44	1.67
331330--331366	15	2.4	16	86	13	51	35	0	0	64	0.94
331335--331374	17	2.3	17	91	4	62	47	0	0	52	1.00
331330--331377	16	3.1	14	80	16	51	39	0	0	60	0.97
331775--331864	15	5.8	15	83	9	74	42	0	0	57	0.98
331777--331864	21	4.4	19	82	14	106	40	0	0	59	0.98
331777--331852	3	25.3	3	86	5	109	39	0	0	60	0.97
334930--335240	156	2.0	155	96	2	581	40	17	17	25	1.90
340999--341210	113	1.9	114	92	1	363	34	14	18	32	1.92
343578--343633	23	2.5	23	82	2	69	37	14	12	35	1.84
344300--345108	75	10.9	76	94	4	1316	22	18	21	36	1.95
344300--345099	221	3.6	223	93	3	1314	22	18	21	36	1.95
345282--345360	11	6.7	11	77	17	79	40	0	0	59	0.97
345303--345374	36	2.0	38	76	17	66	41	0	0	58	0.98
345282--345362	3	27.3	3	79	14	80	40	0	0	59	0.98
348504--348549	21	2.3	21	88	7	69	17	21	30	30	1.96
348505--348551	10	4.7	10	84	7	60	14	21	29	34	1.93
348582--348619	17	2.2	17	90	9	60	21	42	23	13	1.88
348627--348797	29	6.0	28	75	8	121	31	4	19	44	1.71
348655--348797	57	2.5	58	81	5	166	32	4	18	44	1.69
348657--348838	29	6.3	29	73	9	113	31	3	20	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349695--349982	117	2.5	117	85	3	366	19	15	32	32	1.93
352713--352757	21	2.1	21	87	0	63	31	28	24	15	1.96
353432--353584	31	5.0	31	96	2	274	18	19	22	38	1.93
357359--357403	21	2.1	21	87	0	63	31	28	24	15	1.96
357429--357473	22	2.0	22	82	4	54	31	31	26	11	1.91
358076--358136	31	2.0	31	83	6	79	21	19	21	37	1.94
362868--362958	22	4.0	22	88	2	119	18	50	18	12	1.77
362892--362951	17	3.2	17	77	20	66	20	51	18	10	1.74
362964--363138	29	6.1	29	79	4	142	30	6	21	42	1.77
362961--363118	84	1.9	86	87	2	239	29	6	20	43	1.77
363074--363160	29	3.0	29	86	0	102	31	5	22	40	1.78
364036--364314	117	2.4	116	81	8	307	20	15	30	32	1.94
364619--364653	19	1.9	18	88	11	54	28	11	5	54	1.59
365704--365761	19	2.9	19	73	9	62	51	5	17	25	1.65
365693--365777	40	2.1	40	95	4	154	55	5	15	23	1.62
365693--365749	19	2.8	21	71	10	64	56	5	14	24	1.59
366497--366526	2	15.0	2	100	0	60	50	0	0	50	1.00
369219--369254	2	18.0	2	100	0	72	50	0	0	50	1.00
372146--372191	24	1.9	23	82	8	56	56	2	2	39	1.24
372229--372280	21	2.5	21	78	9	54	59	3	0	36	1.16
372443--372501	25	2.4	25	82	0	73	38	10	13	37	1.79
372672--372747	31	2.5	31	82	6	84	34	3	15	46	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373753--373804	15	3.4	15	70	15	52	42	15	7	34	1.75
375507--375761	13	20.5	12	72	20	170	41	0	2	55	1.18
375507--375731	63	3.6	63	96	1	398	42	0	2	54	1.18
375509--375731	37	5.9	37	73	19	135	43	0	2	53	1.18
375564--375764	32	6.2	34	71	20	141	41	0	1	55	1.15
376199--376257	31	1.9	31	96	0	109	42	8	6	42	1.61
376742--376840	28	3.6	27	76	14	89	12	11	3	73	1.20
376770--376988	4	54.0	4	70	21	79	18	5	2	73	1.14
376792--376976	53	3.6	50	74	14	144	17	5	2	74	1.13
380447--380709	95	2.7	95	87	3	348	33	16	17	32	1.93
381842--383305	84	17.5	84	83	2	1683	32	24	19	24	1.97
384730--384810	25	3.3	23	73	20	67	9	13	3	72	1.23
384730--384813	24	3.4	24	72	19	75	9	13	3	73	1.20
384826--384924	36	2.7	39	81	9	109	19	5	2	73	1.11
385421--385608	3	61.7	3	88	5	279	35	0	1	63	1.06
387722--387758	15	2.7	15	88	12	53	24	5	8	62	1.44
398313--398382	1	70.0	1	72	0	50	85	0	11	2	0.69
398314--398383	29	2.4	29	85	4	97	84	0	12	2	0.73
398314--398381	35	1.9	35	88	5	102	85	0	11	2	0.71
398324--398383	6	10.0	6	83	7	77	85	0	11	3	0.72
399324--400452	52	21.7	52	98	0	2154	23	15	24	37	1.93
401012--401684	113	5.9	113	91	1	1049	37	14	20	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401007--401684	227	3.0	226	91	1	1059	37	14	19	28	1.91
401012--401684	340	2.0	343	96	0	1253	37	14	20	28	1.91
401981--402155	3	57.7	3	86	6	237	36	1	1	61	1.11
410765--410798	3	11.0	3	87	6	50	61	2	0	35	1.11
414327--414364	18	2.1	18	95	0	67	5	31	0	63	1.17
415487--415930	134	3.3	134	87	0	638	31	19	18	30	1.96
415946--416049	45	2.3	45	91	0	163	46	16	18	19	1.85
416046--416097	26	2.0	26	88	0	77	38	23	9	28	1.86
416016--416136	64	1.9	64	85	0	170	38	20	15	25	1.92
416072--416620	38	14.4	38	85	0	623	40	16	17	25	1.89
416072--416620	76	7.2	76	85	1	688	40	16	17	25	1.89
416072--416620	114	4.8	114	84	1	688	40	16	17	25	1.89
418059--418096	18	2.2	18	95	4	69	68	5	0	26	1.11
419698--419754	28	2.0	28	86	0	78	36	12	26	24	1.91
426888--426935	13	3.7	13	86	10	71	35	16	22	25	1.95
430680--430724	21	2.1	21	95	0	81	24	20	22	33	1.97
431557--431583	14	1.9	14	100	0	54	51	0	3	44	1.19
432909--432953	14	3.2	15	78	12	51	68	0	0	31	0.89
432906--432955	17	2.9	17	83	13	59	68	0	0	32	0.90
446157--446265	25	4.7	23	71	14	82	45	0	15	37	1.53
446142--446232	46	1.9	47	82	8	114	50	1	16	31	1.52
446195--446297	48	2.2	48	82	8	122	45	0	13	39	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446240--446273	11	3.0	11	83	8	50	44	0	11	44	1.40
457370--457394	13	1.9	13	100	0	50	84	0	16	0	0.63
462120--462202	31	2.6	31	94	3	139	66	0	2	31	1.05
471001--471081	3	26.7	3	85	12	112	65	0	1	33	1.01
471267--471538	137	2.0	134	86	2	382	25	18	29	27	1.98
471540--471865	67	4.9	67	87	3	408	38	13	17	30	1.88
471607--471799	36	5.6	36	65	11	118	39	14	16	29	1.88
471752--471793	21	2.0	20	86	4	57	47	16	16	19	1.83
475403--475487	23	3.4	23	72	20	64	17	24	24	32	1.97
481425--481449	13	1.9	13	100	0	50	64	0	0	36	0.94

Tables:   1   2   3   4   5